| | 7 | |
| | 8 | |
| | 9 | |
| | 10 | [wiki:Data_exchange Semantic Data Exchange] |
| | 11 | |
| | 12 | Summary of Semantic Data Exchange for existing systems discussion |
| | 13 | |
| | 14 | Before wholesale conversion to RDF are there things that can be done |
| | 15 | to improve existing/ legacy systems? |
| | 16 | |
| | 17 | Members of BioMart, CytoScape, Galaxy, InterMine and others met to |
| | 18 | discuss the possibilities/need for improving data exchange. |
| | 19 | |
| | 20 | Conclusions: |
| | 21 | * Data exchange: |
| | 22 | ** Current systems are arbitrary but work well. |
| | 23 | ** A namespace for file formats would be useful. |
| | 24 | ** A namespace for column of tabular data would be useful. Could |
| | 25 | also be used to describe data in other formats e.g. XML, |
| | 26 | though this could be rather verbose. |
| | 27 | |
| | 28 | ** At the moment namespaces for columns is probably more important |
| | 29 | than URIs for each data element in a column. |
| | 30 | |
| | 31 | ** Maybe are applicable to the above: |
| | 32 | Ontology Lookup Service ( |
| | 33 | http://www.ebi.ac.uk/ontology-lookup) and/orLife Science |
| | 34 | Resource Name Project ( http://www.lsrn.org) |
| | 35 | |
| | 36 | ** Agreed that worthwhile to pass URIs to describe columns for |
| | 37 | tabular data. Agreed that arbitrary human-friendly names are |
| | 38 | also good. |
| | 39 | |
| | 40 | ** Agreed to dump all BioMart/ InterMine column headings out, find |
| | 41 | the common/commonly-used ones and work on naming. |
| | 42 | |
| | 43 | * Genome Builds: |
| | 44 | ** Investigate whether is there a standard available for describing |
| | 45 | genome versions/ genome annotation versions. |
| | 46 | ** Consider whether to base naming on ensembl as planning to cover |
| | 47 | all genomes |
| | 48 | |
| | 49 | |
